Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Cp190

Cell type

Cell type Class
Larvae
Cell type
Central Nervous System
MeSH Description
The main information-processing organs of the nervous system, consisting of the brain, spinal cord, and meninges.

Attributes by original data submitter

Sample

source_name
third instar larval central nervous system
strain
Cp190[KO]
tissue
central nervous system
age
wandering third instar larva
genotype
Cp190[KO]
replicate
1
chip antibody
Cp190 rabbit polyclonal (Kaushal et al. 2021)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
About 400 0-14 hour old embryos per biological replicate (three biological replicates prepared per genotype) were dechorionated, dounced in 5 ml crosslinking solution (50 mM Hepes pH 7.9, 1 mM EDTA, 0.5 mM EGTA, 100 mM NaCl, 1.8% formaldehyde), and fixed for 15 minutes. Nuclei were sonicated in RIPA buffer in a Covaris S220 sonicator as described in Kaushal et al. 2021. 60 third instar larval central nervous systems per biological replicate (two biological replicates per genotype) were dissected in PBS and chromatin was prepared as in Kaushal et al. 2021. NEBNext Ultra II DNA Library Prep kit for Illumina

Sequencing Platform

instrument_model
Illumina HiSeq 4000

dm6

Number of total reads
19036139
Reads aligned (%)
77.7
Duplicates removed (%)
16.1
Number of peaks
7366 (qval < 1E-05)

dm3

Number of total reads
19036139
Reads aligned (%)
77.8
Duplicates removed (%)
15.9
Number of peaks
7076 (qval < 1E-05)

Base call quality data from DBCLS SRA